香猪3种组织环状RNA的表达及其功能分析

doi:10.16431/j.cnki.1671-7236.2020.12.009

摘要/Abstract

摘要： 本研究旨在探索环状RNA（circular RNA，circRNA）在香猪皮肤、皮下脂肪及背最长肌的表达及其潜在功能。本研究采用RNA-Seq技术和生物信息学方法，分析香猪皮肤、皮下脂肪及背最长肌circRNA的表达，对3种组织特有circRNA亲本基因进行GO和KEGG富集分析，对样品组织结构功能相关亲本基因中circRNA结合的靶miRNA进行预测。从香猪3种组织表达谱中共鉴定出6 483个circRNAs，皮肤、皮下脂肪及背最长肌分别鉴定出4 575、5 180、5 219个circRNAs，其中特异性表达的分别有83、234、586个；circRNAs在染色体上分布广泛，主要来源于外显子，少数来源于内含子和基因间隔区；多数circRNAs表达量较低；皮肤特有circRNAs的亲本基因主要参与蛋白水解、RNA转运、缝隙连接等过程，其中NF1、MAPK1等亲本基因与皮肤性疾病相关，可能以circRNAs的形式发挥作用，其中亲本基因MAPK1中的circRNA（circ-MAPK1）可结合miR-18a、miR-132、miR-411等，可能参与调控胶原蛋白的形成；皮下脂肪特有circRNAs的亲本基因富集于脂肪细胞生长、发育及癌症等信号通路，ABHD5、PTPN11等亲本基因与脂肪代谢有关，circ-PTPN11结合的miR-103、miR-107、miR-199a-5p等参与调控脂肪细胞增殖、分化及脂质沉积；背最长肌特有的circRNAs亲本基因富集于癌症、感染、肌肉发育等过程，ROCK2、PPP1CC等基因与肌细胞分化及肌肉收缩相关，circ-PPP1CC结合的miR-339、miR-181a、miR-181b等参与调控肌细胞分化、增殖及生长。综上，本研究筛选出的circRNAs及其结合的miRNAs可能参与皮肤胶原蛋白形成、脂肪沉积、肌细胞分化成熟等生物学过程。

关键词: 香猪; 环状RNA(circRNA); 皮肤; 皮下脂肪; 背最长肌

Abstract: The purpose of this study was to explore the expression and potential functions of circular RNA (circRNA) in the skin,subcutaneous fat,and longissimus dorsi muscle of Xiang pig.In this study,RNA-Seq technology and bioinformatics methods were used to analyze the expression of circRNAs in skin,subcutaneous fat,and longissimus dorsi muscle of Xiang pig,GO and KEGG enrichment analysis were performed for the host genes of three tissue-specific circRNAs,then target miRNA prediction was performed for the circRNAs that host genes associated with tissue structure and function.A total of 6 483 circRNAs were identified from the three tissues of Xiang pig,4 575,5 180 and 5 219 circRNAs were identified respectively from skin,subcutaneous fat and longissimus dorsi muscle respectively,among which 83,234 and 586 circRNAs expressed specifically.circRNAs distributed on chromosomes widely and mainly from exons,a few from introns and intergenic regions.The expression levels of most circRNAs were low.The host genes of skin-specific circRNAs were mainly involved inproteolysis,RNA transport,and gap junctions.Among them,host genes such as NF1 and MAPK1 were related to cutaneous diseases and might play a role in the form of circRNAs.The circRNA (circ-MAPK1) that the host gene MAPK1 could bind to miR-18a,miR-132,miR-411,and which might be involved in regulating the formation of collagen.The host genes of circRNAs expressed specifically in subcutaneous fat were enriched in adipocyte growth,development and cancer signaling pathways.ABHD5 and PTPN11 genes were related to fat metabolism,miR-103,miR-107 and miR-199a-5p bound by circ-PTPN11 could be involved in regulating adipocyte proliferation,differentiation and lipidosis.The host genes of circRNAs only expressed in longissimus dorsi muscle associated with cancer,infection,and muscle development.ROCK2 and PPP1CC were involved in myocyte differentiation and muscle contraction,while miR-339,miR-181a and miR-181b bound by circ-PPP1CC were involved in the regulation of myocyte differentiation,proliferation and growth.In conclusion,the circRNAs selected in this study and their combined miRNAs might be involved in skin collagen formation,fat deposition,and muscle cell differentiation and maturation.

Key words: Xiang pig; circular RNA (circRNA); skin; subcutaneous fat; longissimus dorsi muscle

中图分类号:

S828

张晓, 冉雪琴, 牛熙, 黄世会, 王嘉福. 香猪3种组织环状RNA的表达及其功能分析[J]. 中国畜牧兽医, 2020, 47(12): 3870-3881.

ZHANG Xiao, RAN Xueqin, NIU Xi, HUANG Shihui, WANG Jiafu. Expression and Function Analysis of Circular RNA in Three Tissues of Xiang Pig[J]. China Animal Husbandry and Veterinary Medicine, 2020, 47(12): 3870-3881.

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